Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3C

Orthogroup ID

OG0006434

Physical Location & Seq

Genomic Coordinates Reverse (-)

45922235 .. 45923877

Gene Structure 1643 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3CG365400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 567 bp

ATGTTAGCAGGTTTAGATAAGTTAGGGCCTGGGGAGTTAGAAGGATTTATAGAAGAAGTGGAAAATACAATGTTCTTCAGTGCATTAATAATAGATGTTGCTGGGCATGCTGGAAAGCTAGATGCTGCCTTTGAAATCATACAGGAAGCCAGAAATCGAGGAATACAAGTTGGAACTGTATCATATAGCTCATTGACGGGCACATGTAGCAATGCCAAAAATTGGCAGAAAGCACTGGAGCTCTATGAGGATCTTAAGTCAGCTAAAATTGAGCAGACTGTTTCAACTGTCAATGCTTTGATTACTACCCTATGTGATGGGGATCAACTACAAAAGGCTATGGAAGTTCTGTCGGAAATGAAGAGTATAGGACTGCGTCCAAACAGTATAACATACTCCACACTTGTAGTGGCAAGTGAAAAGAAGGATGATCTAGAAGCTGGCCTGCTGCTCCTTTCTCAAGCTGAAAAGGATAAAGTTGTTCCAAACCTTGTCATGTGTAGATGCATTATAGGTGAGTTTACATTGGTAGCTAATTTTTCATGTCCTTCTCACTTTGGCATCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009507 GO:0009536 GO:0009892 GO:0009893 GO:0009894 GO:0009895 GO:0009987 GO:0010468 GO:0010604 GO:0010605 GO:0010608 GO:0010628 GO:0016070 GO:0016787 GO:0016788 GO:0019219 GO:0019222 GO:0031323 GO:0031324 GO:0031329 GO:0031330 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0043487 GO:0043488 GO:0043489 GO:0044237 GO:0044238 GO:0044424 GO:0044444 GO:0044464 GO:0045934 GO:0046483 GO:0048255 GO:0048518 GO:0048519 GO:0048523 GO:0050789 GO:0050794 GO:0051171 GO:0051172 GO:0051252 GO:0051253 GO:0060255 GO:0061013 GO:0065007 GO:0065008 GO:0071704 GO:0080090 GO:0090304 GO:0090305 GO:0097159 GO:1901360 GO:1901363 GO:1902369 GO:1902373 GO:1903311 GO:1903312

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_2 PPR_3

Protein Analysis

188

Amino Acids

20.35

Weight (kDa)

4.73

Isoelectric Point (pI)

24.09

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_long	PF17177	34 - 142	3.9e-09	Pentacotripeptide-repeat region of PRORP
PPR_3	PF13812	46 - 104	4.5e-07	Pentatricopeptide repeat domain
PPR_2	PF13041	59 - 106	6.7e-06	PPR repeat family
PPR_2	PF13041	93 - 136	5.7e-11	PPR repeat family

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0006434)

Species	Orthologous Gene IDs
rosa_laevigata	RLG00000010047 RLG00000020064 RLG00000028774
rosa_multiflora	Rmu_sc0001306.1_g000022 Rmu_sc0001438.1_g000035
rosa_roxburghii	Rroxscaffold_2G00101450 Rroxscaffold_7G00192090
rosa_rugosa	Rorug05G0119200 Rorug05G0119300 Rorug05G0119400 Rorug05G0119500 Rorug05G0119600 Rorug05G0119600 Rorug05G0119700 Rorug05G0119800 Rorug05G0119900 Rorug05G0120000
rosa_samantha	Rh2AG339800 Rh2AG437400 Rh2CG423700 Rh2DG357000 Rh2DG455400 Rh3CG365400 Rh6BG318500 Rh6CG026900 Rh7AG270000 Rh7CG289200

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	222
AclWI	GGATC	2 cut(s)	258, 330
AcuI	CTGAAG	1 cut(s)	61
AfiI	CCNNNNNNNGG	1 cut(s)	222
AflII	CTTAAG	1 cut(s)	254
AflIII	ACRYGT	1 cut(s)	203
AgsI	TTSAA	2 cut(s)	134, 285
AjnI	CCWGG	1 cut(s)	28
AluBI	AGCT	7 cut(s)	118, 189, 241, 263, 440, 464, 533
AluI	AGCT	7 cut(s)	118, 189, 241, 263, 440, 464, 533
Alw21I	GWGCWC	1 cut(s)	243
AlwI	GGATC	2 cut(s)	258, 330
AoxI	GGCC	2 cut(s)	26, 442
ApeKI	GCWGC	2 cut(s)	125, 448
AseI	ATTAAT	1 cut(s)	86
AspS9I	GGNCC	1 cut(s)	26
AsuHPI	GGTGA	1 cut(s)	527
BaeGI	GKGCMC	1 cut(s)	203
BanII	GRGCYC	1 cut(s)	243
Bbv12I	GWGCWC	1 cut(s)	243
BbvI	GCAGC	2 cut(s)	112, 435
BccI	CCATC	1 cut(s)	311
BciT130I	CCWGG	1 cut(s)	30
BfaI	CTAG	2 cut(s)	119, 434
BfrI	CTTAAG	1 cut(s)	254
BisI	GCNGC	2 cut(s)	126, 449
BlsI	GCNGC	2 cut(s)	127, 450
Bme1390I	CCNGG	1 cut(s)	30
BmgT120I	GGNCC	1 cut(s)	26
BmrFI	CCNGG	1 cut(s)	30
BmsI	GCATC	2 cut(s)	112, 494
BpmI	CTGGAG	1 cut(s)	257
BpuEI	CTTGAG	1 cut(s)	444
BsaBI	GATNNNNATC	1 cut(s)	321
BsaJI	CCNNGG	1 cut(s)	29
Bsc4I	CCNNNNNNNGG	1 cut(s)	222
Bse1I	ACTGG	1 cut(s)	240
Bse3DI	GCAATG	1 cut(s)	217
Bse8I	GATNNNNATC	1 cut(s)	321
BseBI	CCWGG	1 cut(s)	30
BseDI	CCNNGG	1 cut(s)	29
BseGI	GGATG	1 cut(s)	433
BseJI	GATNNNNATC	1 cut(s)	321
BseLI	CCNNNNNNNGG	1 cut(s)	222
BseMI	GCAATG	1 cut(s)	217
BseNI	ACTGG	1 cut(s)	240
BseSI	GKGCMC	1 cut(s)	203
BseXI	GCAGC	2 cut(s)	112, 435
BseYI	CCCAGC	1 cut(s)	101
BshFI	GGCC	2 cut(s)	28, 444
BsiHKAI	GWGCWC	1 cut(s)	243
BslI	CCNNNNNNNGG	1 cut(s)	222
BsnI	GGCC	2 cut(s)	28, 444
Bsp1286I	GDGCHC	2 cut(s)	203, 243
Bsp143I	GATC	3 cut(s)	250, 322, 430
BspANI	GGCC	2 cut(s)	28, 444
BspPI	GGATC	2 cut(s)	258, 330
BspTI	CTTAAG	1 cut(s)	254
BsrDI	GCAATG	1 cut(s)	217
BsrI	ACTGG	1 cut(s)	240
BssECI	CCNNGG	1 cut(s)	29
BssMI	GATC	3 cut(s)	250, 322, 430
Bst2UI	CCWGG	1 cut(s)	30
Bst4CI	ACNGT	4 cut(s)	178, 280, 289, 386
Bst6I	CTCTTC	1 cut(s)	356
BstAFI	CTTAAG	1 cut(s)	254
BstC8I	GCNNGC	3 cut(s)	108, 442, 446
BstF5I	GGATG	1 cut(s)	433
BstKTI	GATC	3 cut(s)	253, 325, 433
BstMBI	GATC	3 cut(s)	250, 322, 430
BstMWI	GCNNNNNNNGC	2 cut(s)	107, 207
BstNI	CCWGG	1 cut(s)	30
BstNSI	RCATGY	2 cut(s)	110, 207
BstSCI	CCNGG	1 cut(s)	28
BstSLI	GKGCMC	1 cut(s)	203
BstV1I	GCAGC	2 cut(s)	112, 435
BstX2I	RGATCY	1 cut(s)	250
BstYI	RGATCY	1 cut(s)	250
BsuRI	GGCC	2 cut(s)	28, 444
BtsCI	GGATG	1 cut(s)	433
BtsIMutI	CAGTG	2 cut(s)	85, 233
Cac8I	GCNNGC	3 cut(s)	108, 442, 446
Cfr13I	GGNCC	1 cut(s)	26
CseI	GACGC	1 cut(s)	365
CviAII	CATG	4 cut(s)	107, 204, 496, 543
DpnI	GATC	3 cut(s)	252, 324, 432
DpnII	GATC	3 cut(s)	250, 322, 430
Eam1104I	CTCTTC	1 cut(s)	356
EarI	CTCTTC	1 cut(s)	356
Ecl136II	GAGCTC	1 cut(s)	241
Eco24I	GRGCYC	1 cut(s)	243
Eco53kI	GAGCTC	1 cut(s)	241
Eco57I	CTGAAG	1 cut(s)	61
EcoICRI	GAGCTC	1 cut(s)	241
EcoO109I	RGGNCCY	1 cut(s)	26
EcoRII	CCWGG	1 cut(s)	28
EcoT22I	ATGCAT	1 cut(s)	509
EcoT38I	GRGCYC	1 cut(s)	243
FaeI	CATG	4 cut(s)	110, 207, 499, 546
FatI	CATG	4 cut(s)	106, 203, 495, 542
Fnu4HI	GCNGC	2 cut(s)	126, 449
FokI	GGATG	1 cut(s)	440
FriOI	GRGCYC	1 cut(s)	243
Fsp4HI	GCNGC	2 cut(s)	126, 449
FspBI	CTAG	2 cut(s)	119, 434
GluI	GCNGC	2 cut(s)	126, 449
GsaI	CCCAGC	1 cut(s)	105
GsuI	CTGGAG	1 cut(s)	257
HaeIII	GGCC	2 cut(s)	28, 444
HgaI	GACGC	1 cut(s)	365
Hin1II	CATG	4 cut(s)	110, 207, 499, 546
HphI	GGTGA	1 cut(s)	527
Hpy166II	GTNNAC	1 cut(s)	522
Hpy188I	TCNGA	2 cut(s)	355, 566
Hpy188III	TCNNGA	1 cut(s)	434
Hpy8I	GTNNAC	1 cut(s)	522
HpyAV	CCTTC	3 cut(s)	35, 418, 558
HpyCH4III	ACNGT	4 cut(s)	178, 280, 289, 386
HpyCH4V	TGCA	2 cut(s)	83, 507
HpyF10VI	GCNNNNNNNGC	2 cut(s)	107, 207
Hsp92II	CATG	4 cut(s)	110, 207, 499, 546
Kzo9I	GATC	3 cut(s)	250, 322, 430
LmnI	GCTCC	2 cut(s)	238, 456
LpnPI	CCDG	9 cut(s)	15, 42, 87, 96, 128, 163, 221, 426, 458
Lsp1109I	GCAGC	2 cut(s)	112, 435
LweI	GCATC	2 cut(s)	112, 494
MaeI	CTAG	2 cut(s)	119, 434
MalI	GATC	3 cut(s)	252, 324, 432
MboI	GATC	3 cut(s)	250, 322, 430
MboII	GAAGA	3 cut(s)	65, 67, 373
MflI	RGATCY	1 cut(s)	250
MhlI	GDGCHC	2 cut(s)	203, 243
MluCI	AATT	3 cut(s)	220, 267, 535
MmeI	TCCRAC	2 cut(s)	151, 333
MnlI	CCTC	2 cut(s)	152, 241
Mph1103I	ATGCAT	1 cut(s)	509
MseI	TTAA	2 cut(s)	86, 255
MspCI	CTTAAG	1 cut(s)	254
MspR9I	CCNGG	1 cut(s)	30
MvaI	CCWGG	1 cut(s)	30
MwoI	GCNNNNNNNGC	2 cut(s)	107, 207
NdeII	GATC	3 cut(s)	250, 322, 430
NlaIII	CATG	4 cut(s)	110, 207, 499, 546
NsiI	ATGCAT	1 cut(s)	509
NspI	RCATGY	2 cut(s)	110, 207
PaeI	GCATGC	1 cut(s)	110
PciI	ACATGT	1 cut(s)	203
PflFI	GACNNNGTC	1 cut(s)	375
PflMI	CCANNNNNTGG	1 cut(s)	222
PkrI	GCNGC	2 cut(s)	127, 450
PscI	ACATGT	1 cut(s)	203
PshBI	ATTAAT	1 cut(s)	86
Psp124BI	GAGCTC	1 cut(s)	243
Psp6I	CCWGG	1 cut(s)	28
PspFI	CCCAGC	1 cut(s)	101
PspGI	CCWGG	1 cut(s)	28
PspPI	GGNCC	1 cut(s)	26
PsuI	RGATCY	1 cut(s)	250
PsyI	GACNNNGTC	1 cut(s)	375
SacI	GAGCTC	1 cut(s)	243
SaqAI	TTAA	2 cut(s)	86, 255
SatI	GCNGC	2 cut(s)	126, 449
Sau3AI	GATC	3 cut(s)	250, 322, 430
Sau96I	GGNCC	1 cut(s)	26
ScrFI	CCNGG	1 cut(s)	30
SduI	GDGCHC	2 cut(s)	203, 243
SfaNI	GCATC	2 cut(s)	112, 494
SmlI	CTYRAG	2 cut(s)	254, 459
SmoI	CTYRAG	2 cut(s)	254, 459
SphI	GCATGC	1 cut(s)	110
Sse9I	AATT	3 cut(s)	220, 267, 535
SspMI	CTAG	2 cut(s)	119, 434
SstI	GAGCTC	1 cut(s)	243
StyD4I	CCNGG	1 cut(s)	28
TaaI	ACNGT	4 cut(s)	178, 280, 289, 386
TaqI	TCGA	1 cut(s)	157
TasI	AATT	3 cut(s)	220, 267, 535
Tru1I	TTAA	2 cut(s)	86, 255
Tru9I	TTAA	2 cut(s)	86, 255
TscAI	CASTG	2 cut(s)	85, 240
TseI	GCWGC	2 cut(s)	125, 448
TspDTI	ATGAA	2 cut(s)	374, 531
TspRI	CASTG	2 cut(s)	85, 240
Tth111I	GACNNNGTC	1 cut(s)	375
Van91I	CCANNNNNTGG	1 cut(s)	222
Vha464I	CTTAAG	1 cut(s)	254
VspI	ATTAAT	1 cut(s)	86
XbaI	TCTAGA	1 cut(s)	433
XceI	RCATGY	2 cut(s)	110, 207
XcmI	CCANNNNNNNNNTGG	1 cut(s)	406
XspI	CTAG	2 cut(s)	119, 434
Zsp2I	ATGCAT	1 cut(s)	509

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.